I know this has been strange, but I'm not willing to punt (yet)I've got the same make:[Mirkos-MacBook-Pro:Amber/amber14/src] mirko% which make/usr/bin/make
and passing the "--with-netcdf=/opt/local/lib" flag to configure yields:Checking NetCDF... Using external NetCDF in '/opt/local/lib'Error: '/opt/local/lib/include/netcdf.mod' not found.Configure failed due to the errors above!
I do not have an 'include' subdir under /opt/local/libthanks!Mirko

> I'm still trying to install Ambertools15 and Amber14 on a
> Macbook pro (OS X 10.11.6) and continue to have issues when executing
> ./configure w/ and w/o -macAccelerate using either gnu or clang
> compilers.

It's clear that this is an unusual enough situation (although it seems to have
happened at least once before) that people on the list don't have an easy
answer.

It's weird that it stops here: the next line in my netcdf_config.log is
this:

checking whether make supports nested variables... yes

So: what is the result of typing "which make"? (I get /usr/bin/make, but
maybe you have some other make in your path??)

If that doesn't lead anywhere:
One other possible difference between your machine and mine (and most other
people's) may be that you have a netcdf installed via mactools. What happens
if you pass the "--with-netcdf=/opt/local/lib" flag to configure?